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<table width="100%"><tr><td align="left"><a href="../../index.html"><img alt="<" border="0" src="../../left.png">&nbsp;Master index</a></td>
<td align="right"><a href="index.html">Index for code\examples&nbsp;<img alt=">" border="0" src="../../right.png"></a></td></tr></table>

<h1>Index for code\examples</h1>

<h2>Matlab files in this directory:</h2>
<table>
<tr><td><img src="../../matlabicon.gif" alt="" border="">&nbsp;<a href="assembleHistoneDS.html">assembleHistoneDS</a></td><td>Assemble a local representation of the histone modification data for GM06990 cell line (chrm 7), accessed from UCSC Encode DAS server </td></tr><tr><td><img src="../../matlabicon.gif" alt="" border="">&nbsp;<a href="assembleHistoneDSforClustering.html">assembleHistoneDSforClustering</a></td><td>Organizes histone modification data (GM06990, chrm 7) by chromosome regions </td></tr><tr><td><img src="../../matlabicon.gif" alt="" border="">&nbsp;<a href="createTSConnectionHeatmap_Fig5CD.html">createTSConnectionHeatmap_Fig5CD</a></td><td>Creates a heatmap of tumor suppressor connectivity from 11 DAS sources that provides protein interaction data </td></tr><tr><td><img src="../../matlabicon.gif" alt="" border="">&nbsp;<a href="createTumorSuppressorsNet.html">createTumorSuppressorsNet</a></td><td>Cretes a protein interaction network involving tumor suppressors for the specified DAS molecular interaction database </td></tr><tr><td><img src="../../matlabicon.gif" alt="" border="">&nbsp;<a href="histRegionsCoverage.html">histRegionsCoverage</a></td><td>Coverage of histone modification marks grouped by regions (GM06990, chrm 7) </td></tr><tr><td><img src="../../matlabicon.gif" alt="" border="">&nbsp;<a href="histonesPlots_CancervsNormal_Fig4B.html">histonesPlots_CancervsNormal_Fig4B</a></td><td>Comparison of histone modification data between a normal (GM06990) and cancer cell line (K562), over chromosome 7 </td></tr><tr><td><img src="../../matlabicon.gif" alt="" border="">&nbsp;<a href="performHistoneClustering_Fig4CD.html">performHistoneClustering_Fig4CD</a></td><td>Creates a cluster tree and heatmap of histone modification data (GM06990, chrm 7) </td></tr><tr><td><img src="../../matlabicon.gif" alt="" border="">&nbsp;<a href="tumorSuppressorNetwork_Fig5AB.html">tumorSuppressorNetwork_Fig5AB</a></td><td>Creates a protein interaction network for human tumor supressors (TS) and their interacting partners, as found in PFAM database. </td></tr></table>

<h2>Other Matlab-specific files in this directory:</h2>
<ul style="list-style-image:url(../../matlabicon.gif)">
<li>GM06990chips_chrm7.mat</li><li>GM06990chips_chrm7_RegionsView.mat</li><li>histonePlots_data.mat</li><li>TSNetwork_Heatmap.mat</li></ul>
<h2>Subsequent directories:</h2>
<ul style="list-style-image:url(../../matlabicon.gif)">
<li>.svn</li></ul>

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